Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A23 F60 I1 R1	21	86.7	2922664	98.3%	2872978	139.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,815,883	+C	coding (667/687 nt)	rph ←	truncated RNase PH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,815,879	1	.	C	100.0%	138.8 / NA	37	E224G (GAA→GGA)	rph	truncated RNase PH
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (17/20); total (17/20)

CAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATT‑CCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTC  >  NC_000913/3815741‑3816012

cAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGgattcgatt‑c                                                                                                                                       <  2:358323/140‑1 (MQ=255)

     aaCTGGCGCTGATATTGTTTCACGCGTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATT‑ccc‑cct                                                                                                                                 <  1:464924/140‑3 (MQ=255)

     aaCTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATT‑ccc‑cct                                                                                                                                 <  2:205606/140‑3 (MQ=255)

          gcgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGc                                                                                                                             <  1:849058/140‑1 (MQ=255)

           cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGcc                                                                                                                            >  2:1180686/1‑140 (MQ=255)

             cTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCag                                                                                                                          <  2:1378937/140‑1 (MQ=255)

                  atGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCca                                                                                                                     <  2:989563/140‑1 (MQ=255)

                  atGGTTTCATGCCTTAGCTCCTGATATTAGTTTTCTATAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCca                                                                                                                     <  1:679551/140‑1 (MQ=255)

                       ttCATGCCTTCGCTCCTCATCTTACCTTTTTACAGACCAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAg                                                                                                                <  1:377774/140‑1 (MQ=255)

                          aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATg                                                                                                             <  1:14805/140‑1 (MQ=255)

                          aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGACAACAAGATg                                                                                                             >  1:807806/1‑140 (MQ=255)

                          aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGCAATCGATTCCCC‑CTCGGCCCAGAGCCAACAAGATg                                                                                                             >  2:679551/1‑140 (MQ=255)

                           tGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGa                                                                                                            >  2:190627/1‑140 (MQ=255)

                           tGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGa                                                                                                            >  2:1085116/1‑140 (MQ=255)

                                    tcctcATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCtt                                                                                                   <  2:1019053/140‑1 (MQ=255)

                                    tcctcATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGACAACAAGATGAGTAGCTCtt                                                                                                   <  2:807806/140‑1 (MQ=255)

                                      cacATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCa                                                                                                 <  2:1115190/138‑1 (MQ=255)

                                                   tCTACAGACAAAAAAAAGCCGACTCATAAGTCCCCTTAAAAATCAGTTTGCCCGCGCCGCC‑TCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGCGCCGGAGCCAACAACATGAGTAGCTATTCATGGGCGAACGGCTc                                                                                   <  2:873696/140‑1 (MQ=255)

                                                       cAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGcc                                                                                <  1:803853/140‑1 (MQ=255)

                                                          aCAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTc                                                                             >  1:1388582/1‑140 (MQ=255)

                                                          aCAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGCAGCCCTACATGGGCGAACGGCTCGCCTTc                                                                             >  1:520214/1‑140 (MQ=255)

                                                          aCAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGAAGCACTGCATGGGCGAACGGCTCGCCTTc                                                                             >  1:685902/1‑140 (MQ=255)

                                                            aaaaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTg                                                                           >  1:1160551/1‑140 (MQ=255)

                                                              aaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGcc                                                                         <  2:342934/140‑1 (MQ=255)

                                                                   aGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTccc                                                                    <  2:765254/140‑1 (MQ=255)

                                                                    ggCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTATCTCTTCATGGGGGAACGGCTCGCCTTCTGCCGTcccc                                                                   >  1:543940/1‑140 (MQ=255)

                                                                      cGACTCATCAGTCGCGTTAAAACTCGGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTg                                                                 <  1:593594/140‑1 (MQ=255)

                                                                      cGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTg                                                                 <  2:782614/140‑1 (MQ=255)

                                                                      cGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGAAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTg                                                                 <  1:190627/140‑1 (MQ=255)

                                                                      cGACTCATCAGTCGCCTCAAAAATCAGTTTGTCAGCGCCCCCTTCTGCCTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTg                                                                 <  2:403881/140‑1 (MQ=255)

                                                                        aCTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCa                                                               <  2:1388582/140‑1 (MQ=255)

                                                                               aGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGATGAACGGTTCGGCTACTGCCGGCCCCTGCACTTCAat                                                        >  1:403881/1‑140 (MQ=255)

                                                                                  cGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAatgat                                                     >  1:360058/1‑140 (MQ=255)

                                                                                        aaaaaTCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATAGGTGAACGTCTCCCCTGCTGCCGTCGCCTGCACTTCAatgactgtctc                                               >  2:430347/1‑133 (MQ=255)

                                                                                             tCAGTTTGCCAGCGCCGACTTCTGCGTCGCGCCCATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCtt                                          <  2:685902/140‑1 (MQ=255)

                                                                                                           ccgccTTCTGCGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACg                            >  2:855930/1‑140 (MQ=255)

                                                                                                                     cGTCGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTAATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCgg                  >  1:76111/1‑140 (MQ=255)

                                                                                                                        cGCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtct               <  2:295118/140‑1 (MQ=255)

                                                                                                                         gCTACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACTGTCATGTCGTtctc              >  2:1349148/1‑140 (MQ=255)

                                                                                                                           tACAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATTTCGGTCTCTg            >  2:1261085/1‑140 (MQ=255)

                                                                                                                             cAATGGATTCGATTCCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCg          <  1:213311/140‑1 (MQ=255)

                                                                                                                                    ttcgattcCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGt   >  2:1109395/1‑140 (MQ=255)

                                                                                                                                    ttcgatt‑cCCACTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGt   >  2:1264785/1‑140 (MQ=255)

                                                                                                                                     tcgattcCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTc  >  1:284372/1‑140 (MQ=255)

                                                                                                                                     tcgattcCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTc  >  2:1284590/1‑140 (MQ=255)

                                                                                                                                     tcgattcCCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTc  >  1:100303/1‑140 (MQ=255)

CAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATT‑CCC‑CTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTC  >  NC_000913/3815741‑3816012

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A